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Combination of novel and public RNA-seq datasets to generate an mRNA expression atlas for the domestic chicken
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Outgoing claims: the papers this work cites, builds on, or argues with.
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Derivation of a mouse model for conditional inactivation of Pax9
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Claudin-4: Functional Studies Beyond the Tight Junction
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Keratin filaments of epithelial and taste-bud cells in the circumvallate papillae of adult and developing mice
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Some Results on Mean Square Error for Factor Score Prediction
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Bioinformatic discovery and initial characterisation of nine novel antimicrobial peptide genes in the chicken
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Gene editing in birds takes flight
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Origin and Functions of Tissue Macrophages
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Chick stem cells: Current progress and future prospects
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Intracellular signalling pathways activated by leptin
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PU.1 and C/EBPα/β convert fibroblasts into macrophage-like cells
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Comparison of the transcriptional landscapes between human and mouse tissues
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Evolutionary Origin and Diversification of Epidermal Barrier Proteins in Amniotes
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inferredcites →https://doi.org/10.1093/nar/25.17.3389openalex-snapshot
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BIND: the Biomolecular Interaction Network Database
inferredcites →https://doi.org/10.1093/nar/gkg838openalex-snapshot
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IntAct: an open source molecular interaction database
inferredcites →https://doi.org/10.1093/nar/gkh086openalex-snapshot
The Database of Interacting Proteins: 2004 update
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MINT: the Molecular INTeraction database
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Human Protein Reference Database--2009 update
inferredcites →https://doi.org/10.1093/nar/gkq224openalex-snapshot
Biases in Illumina transcriptome sequencing caused by random hexamer priming
inferredcites →https://doi.org/10.1093/nar/gkr854openalex-snapshot
The sequence read archive: explosive growth of sequencing data
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The BioGRID interaction database: 2015 update
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BioGPS: building your own mash-up of gene annotations and expression profiles
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Integrated interactions database: tissue-specific view of the human and model organism interactomes
inferredcites →https://doi.org/10.1093/nar/gkv1189openalex-snapshot
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
inferredcites →https://doi.org/10.1101/gr.073585.107openalex-snapshot
EnsemblCompara GeneTrees: Complete, duplication-aware phylogenetic trees in vertebrates
inferredcites →https://doi.org/10.1101/gr.124321.111openalex-snapshot
Differential expression in RNA-seq: A matter of depth
inferredcites →https://doi.org/10.1101/gr.1858004openalex-snapshot
The Ensembl Automatic Gene Annotation System
inferredcites →https://doi.org/10.1101/gr.205602openalex-snapshot
Relating Whole-Genome Expression Data with Protein-Protein Interactions
inferredcites →https://doi.org/10.1103/physrevlett.90.088102openalex-snapshot
Zipf’s Law in Gene Expression
inferredcites →https://doi.org/10.1111/age.12388openalex-snapshot
Genome‐wide RNA ‐Seq analysis of breast muscles of two broiler chicken groups differing in shear force
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Large‐scale atlas of microarray data reveals the distinct expression landscape of different tissues in Arabidopsis
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MafB/c-Maf Deficiency Enables Self-Renewal of Differentiated Functional Macrophages
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Evolutionary Dynamics of Gene and Isoform Regulation in Mammalian Tissues
inferredcites →https://doi.org/10.1126/science.1259418openalex-snapshot
Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells
inferredcites →https://doi.org/10.1128/mcb.10.5.1969openalex-snapshot
The Amphiregulin Gene Encodes a Novel Epidermal Growth Factor-Related Protein with Tumor-Inhibitory Activity
inferredcites →https://doi.org/10.1128/microbiolspec.mchd-0024-2015openalex-snapshot
Transcriptional Regulation and Macrophage Differentiation
inferredcites →https://doi.org/10.1136/jmedgenet-2016-103832openalex-snapshot
Mutations in CEP120 cause Joubert syndrome as well as complex ciliopathy phenotypes
inferredcites →https://doi.org/10.1146/annurev-animal-031412-103701openalex-snapshot
Integrated Genomic Approaches to Enhance Genetic Resistance in Chickens
inferredcites →https://doi.org/10.1152/physrev.00019.2012openalex-snapshot
Claudins and the Modulation of Tight Junction Permeability
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Third Report on Chicken Genes and Chromosomes 2015
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Detection of gene pathways with predictive power for breast cancer prognosis
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GC-Content Normalization for RNA-Seq Data
inferredcites →https://doi.org/10.1186/1471-2105-6-37openalex-snapshot
Can Zipf's law be adapted to normalize microarrays?
inferredcites →https://doi.org/10.1186/1471-2148-8-241openalex-snapshot
Molecular evolution of the keratin associated protein gene family in mammals, role in the evolution of mammalian hair
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A tale of three next generation sequencing platforms: comparison of Ion torrent, pacific biosciences and illumina MiSeq sequencers
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The complex transcriptional landscape of the anucleate human platelet
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Coexpression analysis of large cancer datasets provides insight into the cellular phenotypes of the tumour microenvironment
inferredcites →https://doi.org/10.1186/1471-2164-14-586openalex-snapshot
The importance of tissue specificity for RNA-seq: highlighting the errors of composite structure extractions
inferredcites →https://doi.org/10.1186/1471-2164-14-59openalex-snapshot
Development of a high density 600K SNP genotyping array for chicken
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A network-based approach to identify substrate classes of bacterial glycosyltransferases
inferredcites →https://doi.org/10.1186/1471-2164-4-31openalex-snapshot
Congruence of tissue expression profiles from Gene Expression Atlas, SAGEmap and TissueInfo databases
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RNA-seq: impact of RNA degradation on transcript quantification
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Impact of RNA degradation on gene expression profiling
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Using graph theory to analyze biological networks
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Impact of RNA-seq attributes on false positive rates in differential expression analysis of de novo assembled transcriptomes
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Unequal evolutionary conservation of human protein interactions in interologous networks
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Methods for analyzing deep sequencing expression data: constructing the human and mouse promoterome with deepCAGE data
inferredcites →https://doi.org/10.1186/s12711-016-0275-0openalex-snapshot
Long noncoding RNA repertoire in chicken liver and adipose tissue
inferredcites →https://doi.org/10.1186/s12859-017-1714-9openalex-snapshot
Integration of quantitated expression estimates from polyA-selected and rRNA-depleted RNA-seq libraries
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The development and maintenance of the mononuclear phagocyte system of the chick is controlled by signals from the macrophage colony-stimulating factor receptor
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The impact of read length on quantification of differentially expressed genes and splice junction detection
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Meta-analysis of RNA-seq expression data across species, tissues and studies
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A survey of best practices for RNA-seq data analysis
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Generation of mice with functional inactivation oftalpid3, a gene first identified in chicken
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Construction, Visualisation, and Clustering of Transcription Networks from Microarray Expression Data
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Consistent Errors in First Strand cDNA Due to Random Hexamer Mispriming
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ERK Signaling Is Essential for Macrophage Development
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Dynamic Changes in the Follicular Transcriptome and Promoter DNA Methylation Pattern of Steroidogenic Genes in Chicken Follicles throughout the Ovulation Cycle
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A Comparison of RNA-Seq Results from Paired Formalin-Fixed Paraffin-Embedded and Fresh-Frozen Glioblastoma Tissue Samples
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RASSF10 is an epigenetically inactivated tumor suppressor and independent prognostic factor in hepatocellular carcinoma
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XG: the forgotten blood group system
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All-Trans Retinoic Acid Regulates Cx43 Expression, Gap Junction Communication and Differentiation in Primary Lens Epithelial Cells
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RNA-seq analysis revealed novel genes and signaling pathway associated with disease resistance to avian influenza virus infection in chickens
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mRNA expression in different developmental stages of the chicken bursa of Fabricius
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Changes in renal gene expression associated with induced ochratoxicosis in chickens: activation and deactivation of transcripts after varying durations of exposure
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Bird Integumentary Melanins: Biosynthesis, Forms, Function and Evolution
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Cell-Autonomous Sex Differences in Gene Expression in Chicken Bone Marrow–Derived Macrophages
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TIM-4 Expressed on APCs Induces T Cell Expansion and Survival
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Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1093/bib/bbaa414openalex-snapshot
DSTG: deconvoluting spatial transcriptomics data through graph-based artificial intelligence
inferred← citeshttps://doi.org/10.1186/s12864-023-09503-1openalex-snapshot
Genetic architecture and key regulatory genes of fatty acid composition in Gushi chicken breast muscle determined by GWAS and WGCNA
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